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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgccagcactgccttgactctaaattttggtaccttgcgatgataactgttgttgtcccttgatttgatgttttaacaaacttggtgtgatcattgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT

Basic information

species Glycine max
transcript GLYMA14G01290.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os08g25734.2 (Oryza sativa), 3'ss of exon 2
gtaatgccagcact-gccttgactctaaattttggtaccttgcgatgataactgttgttgtcccttgatttgatgttttaacaaacttggtgtgatc-----attgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT
       || |||| | | |  |  | | ||   | |  | ||  || |    |  | |  |  |  || | ||      ||  | || || | ||      |   |||||||||||||||||||| || ||||| || ||||| ||||| ||||| |||||| |||| ||  |  |||||||||| || ||  | || || ||||| |
-------caacacttgtcgtttcagttagttactgaagatggctgtgtttgtag--gatcccaatctatcttatacaagtactgattttgttttatattctgacctcagGGTACTGCAGATGCTGTAAGACAGTACTTATGGCTATTTGAGGAGCATAATGTTATGGAGTTTCTAATTCTGGCTGGAGATCACCTTTACCGCATGGACT

upper sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os09g12660.2 (Oryza sativa), 3'ss of exon 2
gtaatgccagcactgccttgactctaaattttggtaccttgcgatgataactgttgttgtcccttgatttgatgttttaacaaacttggtgtgatc--attgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT
   ||    |  || | | |  |   || |||  |    |  | |      | |     | |||| |          |||   | || || |  |    |  ||||||||||||||||||||| | || || || ||||| ||||| || ||||||||| |||| ||  |  || ||||||| || ||  |||| || ||||| |
---atagatgagct-cttaggttaccaactttcatgttatatggtttctg-tatgacaataccttaaggacgctgcctaatttattttgtttctttctgtctcagGGTACTGCAGATGCTGTGCGACAATACTTATGGCTATTTGAGGAACACAATGTTATGGAGTTTCTCATTTTGGCTGGAGATCACCTGTACCGTATGGACT

upper sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G068506_T03 (Zea mays), 3'ss of exon 2
gtaatgccagcactgccttgactctaaattttggtaccttgcgatgataactgttgttgtcccttgatttgatgttttaacaaacttggtgtgatcattgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT
 | ||||||  |     |  |  |||    |    |    |   || || |     |      || |  | |||| || |    |||       |  |  |||||||||||||||||||| |||||||| |||||| | ||||| ||||| |||||  |||||||  |  |||| ||||| || ||  |||| || ||||| |
atcatgccataagcaaatgcatgcta---ctctacatgaagttttgctagcccacttcactagtttacgtcatgtattgattttcttttatattttttctcagGGTACTGCAGATGCTGTAAGGCAGTACTTGTGGTTGTTTGAGGAGCATAATGTGATGGAATTTCTAATTCTTGCTGGCGATCACCTGTACCGGATGGACT

upper sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv12s0057g01480.t01 (Vitis vinifera), 3'ss of exon 2
gtaatgccagcactgccttgactctaaattttggtaccttgcgatgataactgttgttgtcccttgatttgatgttttaac--aaacttggtgtgatcatt-gcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT
      |  ||| || || ||   |   ||  | ||     | ||    |  ||| |      ||   | | ||||| |    ||| ||||| |    |||  ||||| || || |||||||| ||||||||||| ||||| ||||| || ||||||||| | |||||| | ||||| ||||| ||||||||||||||||||||||
------caggcattgtctagaaaattgtttcggttaatcctctatttgtaaagttttcccttgtttgctgggtgtttcacatgaaatttggtttatggatttacagGGAACAGCTGATGCTGTCAGGCAGTATTTATGGCTGTTTGAGGAACACAATGTTCTTGAATTCCTTGTTCTTGCTGGGGACCATTTGTATCGAATGGATT

upper sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ16157 (Selaginella moellendorffii), 3'ss of exon 2
gtaatgccagcactgccttgactctaaattttggtaccttgcgatgataactgttgttgt--cccttgatttgatgttttaacaaacttggtgtgatcattgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT
                                               ||| |||| |        || | ||   |   |  ||    ||  |   |  ||| |||| || || ||||||||||| || ||| |||||||||||||||||||   |||  |||| |  ||| |||||||||| || ||| | ||||| ||||| |
----------------------------------------------gtaattgttctcaaagtttttaagttctcgcagttccag--ctgaagctgtttttgtagGGAACCGCTGATGCTGTGAGACAATATATGTGGCTTTTTGAAGAGCAGCCTGTGATGGAGTATTTGATTCTGGCTGGAGATCATCTCTATCGCATGGACT

upper sequence: GLYMA14G01290.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ17026 (Selaginella moellendorffii), 3'ss of exon 2
gtaatgccagcactgccttgactctaaattttggtaccttgcgatgataactgttgttgt--cccttgatttgatgttttaacaaacttggtgtgatcattgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT
                                               ||| |||| |        || | ||   |   |  ||  ||     || |  ||| |||| || || ||||||||||| || ||| |||||||||||||||||||   |||  |||| |  ||| |||||||||| || ||| | ||||| ||||| |
----------------------------------------------gtaattgttctcaaagtttttaagttctcgcagttccag-ctgaaattgttttttgtagGGAACCGCTGATGCTGTGAGACAATATATGTGGCTTTTTGAAGAGCAGCCTGTGATGGAGTATTTGATTCTGGCTGGAGATCATCTCTATCGCATGGACT

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|15337832|gb|BI498488.1|BI498488
EST:     TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAG                         GGTACTGCAGATGCTGTGAGG
genomic: TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgccag ... atcattgcagGGTACTGCAGATGCTGTGAGG
EST: gi|13478311|gb|BG507837.1|BG507837
EST:     TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAG                         GGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
genomic: TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgccag ... atcattgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
EST: gi|120532534|gb|EH260667.1|EH260667
EST:     TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAG                         GGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
genomic: TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgccag ... atcattgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
EST: gi|17022405|gb|BM093439.1|BM093439
EST:     TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAG                         GGTACTGCAGATGCTGTGAGGCAGTAT
genomic: TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgccag ... atcattgcagGGTACTGCAGATGCTGTGAGGCAGTAT
EST: gi|7796534|gb|AW781931.1|AW781931
EST:     TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAG                         GGTACTGCAGAT
genomic: TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgccag ... atcattgcagGGTACTGCAGAT
EST: gi|22521682|gb|BU080493.1|BU080493
EST:     TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAG                         GGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
genomic: TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgccag ... atcattgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
EST: gi|209712745|gb|BW681599.1|BW681599
EST:     TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAG                         GGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
genomic: TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgccag ... atcattgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
EST: gi|17400675|gb|BM177457.1|BM177457
EST:     TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAG                         GGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAA
genomic: TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgccag ... atcattgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAA
EST: gi|23728291|gb|BU762193.1|BU762193
EST:     TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAG                         GGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT
genomic: TTGAGGTTCTTGCTGCTCAGCAGAGTCCTGAGAATCCTAATTGGTTCCAGgtaatgccag ... atcattgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactgttgttgtcccttgatttgatgttttaacaaacttggtgtgatcattgcagGGTACTGCAGATGCTGTGAGGCAGTATTTGTGGCTTTTTGAAGAGCACAATGTTTTGGAATTCTTGGTTCTGGCTGGTGACCATTTGTATCGAATGGATT
                          ttttaac  putative branch site (score: 2)
                  atttgatgttttaa  TA-rich tract